introns

Data license: ODbL · Data source: Larue & Roy, 2023 · About: Minor Intron Database (WtMTA)

id
INTEGER (primary key), globally unique identifier for each intron
dinucleotide_pair
TEXT, terminal dinucleotide sequences of the intron
is_minor
INTEGER, indicates if the intron is a minor intron (1) or not (0)
score
REAL, score representing the probability (0-100%) of the intron being minor
length
INTEGER, length of the intron in base pairs
transcript_id
INTEGER (foreign key referencing transcripts(id)), parent transcript
ordinal_index
INTEGER, ordinal position of the intron within the transcript (e.g., 3 for the third intron)
start
INTEGER, start position of the intron in the genome
end
INTEGER, end position of the intron in the genome
taxonomy_id
INTEGER (foreign key referencing genomes(taxonomy_id)), NCBI taxonomy identifier for species
scored_motifs
TEXT, motifs scored for the intron
phase
INTEGER, phase of the intron in coding sequence (0, 1, or 2 or null for introns outside of coding sequence)
in_cds
INTEGER, indicates if the intron is within the coding sequence (1) or not (0; e.g., UTR introns)
relative_position
REAL, relative position of the intron within the transcript (as a percentage of coding length)

6 rows where transcript_id = 17188154

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Suggested facets: dinucleotide_pair, score, phase, in_cds

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
91738615 GT-AG 0 2.5560571664562343e-05 114 rna-XM_009010704.1 17188154 1 3424408 3424521 Helobdella robusta 6412 AAC|GTTCGTATTC...GAAACTGTAACA/CGAAATGTTACA...TCAAG|TTC 1 1 1.105
91738616 GT-AG 0 1.000000099473604e-05 4263 rna-XM_009010704.1 17188154 2 3417571 3421833 Helobdella robusta 6412 CAA|GTTAGTAGCA...AAAAATTTAATA/AAAAATTTAATA...TGTAG|GCA 1 1 41.73
91738617 GT-AG 0 0.0081070996853852 944 rna-XM_009010704.1 17188154 3 3416493 3417436 Helobdella robusta 6412 CAG|GTCTCTGTCA...CAGACTTTAAAA/CGTTAATTTATA...TGCAG|CTT 0 1 43.845
91743864 GT-TT 0 1.000000099473604e-05 39 rna-XM_009010704.1 17188154 4 3416313 3416351 Helobdella robusta 6412 ATT|GTAAGTTGAT...GGCCGGTTGATT/GGCCGGTTGATT...TGATT|GGT   0 46.07
91743865 AT-AT 0 0.0939269290384816 46 rna-XM_009010704.1 17188154 5 3415941 3415986 Helobdella robusta 6412 TAT|ATATATATAT...ATATATTTATTT/TATATATTTATT...TTTAT|TTA   0 51.215
91743866 GT-AC 0 0.00021524082447 383 rna-XM_009010704.1 17188154 6 3413035 3413417 Helobdella robusta 6412 CGC|GTTTGAATTT...TTTATTTTTATG/TTTATTTTTATG...TTGAC|ATC   0 91.035

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CREATE TABLE "introns" (
"id" INTEGER,
  "dinucleotide_pair" TEXT,
  "is_minor" INTEGER,
  "score" REAL,
  "length" INTEGER,
  "transcript_id" INTEGER,
  "ordinal_index" INTEGER,
  "start" INTEGER,
  "end" INTEGER,
  "taxonomy_id" INTEGER,
  "scored_motifs" TEXT,
  "phase" INTEGER,
  "in_cds" INTEGER,
  "relative_position" REAL
  ,PRIMARY KEY ([id]),
   FOREIGN KEY([transcript_id]) REFERENCES [transcripts]([id]),
   FOREIGN KEY([taxonomy_id]) REFERENCES [genomes]([taxonomy_id])
);
CREATE INDEX [idx_introns_transcript_id]
    ON [introns] ([transcript_id]);
CREATE INDEX [idx_introns_taxonomy_id]
    ON [introns] ([taxonomy_id]);
CREATE INDEX [idx_introns_phase]
    ON [introns] ([phase]);
CREATE INDEX [idx_introns_is_minor]
    ON [introns] ([is_minor]);
CREATE INDEX [idx_introns_dinucleotide_pair]
    ON [introns] ([dinucleotide_pair]);
CREATE INDEX [idx_introns_score]
    ON [introns] ([score]);
CREATE INDEX [idx_introns_in_cds]
    ON [introns] ([in_cds]);